Biobase
This package is for version 2.10 of Bioconductor;
for the stable, up-to-date release version, see
Biobase.
Biobase: Base functions for Bioconductor
Bioconductor version: 2.10
Functions that are needed by many other packages or which replace R functions.
Author: R. Gentleman, V. Carey, M. Morgan, S. Falcon
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
Citation (from within R,
enter citation("Biobase")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Biobase")
Documentation
To view documentation for the version of this package installed
in your system, start R and enter:
browseVignettes("Biobase")
PDF
An introduction to Biobase and ExpressionSets
PDF
Bioconductor Overview
PDF
Notes for eSet developers
PDF
Notes for writing introductory 'how to' documents
PDF
quick views of eSet instances
Details
Version
2.16.0
In Bioconductor since
BioC 1.6 (R-2.1) or earlier (> 11 years)
License
Artistic-2.0
LinkingTo
SystemRequirements
Enhances
Depends On Me
a4Base,
a4Core,
ACME,
affy,
affycomp,
affycompData,
affyContam,
affycoretools,
affylmGUI,
affyPLM,
affyQCReport,
AGDEX,
Agi4x44PreProcess,
AgiMicroRna,
ALL,
altcdfenvs,
annaffy,
AnnotationDbi,
ArrayExpress,
arrayMvout,
ArrayTools,
beadarray,
beadarrayExampleData,
beadarraySNP,
bgx,
BicARE,
BiocCaseStudies,
bioDist,
BioMVCClass,
BioNet,
birta,
bladderbatch,
BrainStars,
cancerdata,
Category,
categoryCompare,
CCl4,
cellHTS,
cellHTS2,
ceu1kg,
ceuhm3,
CGHbase,
CGHcall,
CGHregions,
charm,
cheung2010,
clippda,
CLL,
clusterStab,
CMA,
cn.farms,
cn.mops,
codelink,
colonCA,
convert,
copa,
davidTiling,
ddCt,
DESeq,
DEXSeq,
DFP,
DLBCL,
dressCheck,
dsQTL,
dualKS,
dyebias,
easyRNASeq,
EBarrays,
EDASeq,
eisa,
encoDnaseI,
ExiMiR,
fabia,
factDesign,
fastseg,
fibroEset,
flowClust,
flowCore,
flowWorkspace,
frma,
gaga,
gaschYHS,
GeneAnswers,
GeneExpressionSignature,
GeneMeta,
geneplotter,
geneRecommender,
GeneRegionScan,
GeneSelectMMD,
GeneSelector,
genoset,
GEOquery,
GGdata,
GOFunction,
golubEsets,
goProfiles,
GOstats,
GSEABase,
GSEAlm,
GSVAdata,
GWASTools,
harbChIP,
HELP,
hmyriB36,
hopach,
HTqPCR,
htSeqTools,
humanStemCell,
HybridMTest,
idiogram,
inSilicoDb,
inSilicoMerging,
isobar,
iterativeBMA,
Iyer517,
kidpack,
leeBamViews,
LMGene,
lumi,
lumiBarnes,
lungExpression,
LVSmiRNA,
macat,
maDB,
MAQCsubset,
MAQCsubsetAFX,
MAQCsubsetILM,
maSigPro,
MergeMaid,
methylumi,
Mfuzz,
MiChip,
minfi,
miRNATarget,
MLInterfaces,
MmPalateMiRNA,
MSnbase,
Mulcom,
multtest,
mvoutData,
Neve2006,
NormqPCR,
nucleR,
oneChannelGUI,
OrderedList,
OTUbase,
OutlierD,
PAnnBuilder,
panp,
pcaMethods,
pcot2,
pdInfoBuilder,
pdmclass,
PGSEA,
phenoTest,
plgem,
PLPE,
prada,
PREDA,
PREDAsampledata,
ProData,
PROMISE,
puma,
pumadata,
qpcrNorm,
R453Plus1Toolbox,
RbcBook1,
rbsurv,
ReadqPCR,
reb,
RefPlus,
Resourcerer,
rHVDM,
Ringo,
Rmagpie,
rMAT,
RNAinteract,
rnaSeqMap,
RpsiXML,
rqubic,
RTCA,
RTopper,
Rtreemix,
safe,
sigaR,
siggenes,
simpleaffy,
SpeCond,
SpikeInSubset,
spkTools,
splicegear,
TDARACNE,
tigre,
tilingArray,
topGO,
tspair,
tweeDEseqCountData,
twilight,
VegaMC,
vsn,
webbioc,
XDE,
yeastCC
Imports Me
ABarray,
aCGH,
adSplit,
affy,
affyILM,
affyQCReport,
AgiMicroRna,
annotate,
AnnotationDbi,
annotationTools,
ArrayExpressHTS,
arrayQualityMetrics,
ArrayTools,
attract,
betr,
biocViews,
BioSeqClass,
BrainStars,
Category,
categoryCompare,
ccTutorial,
cgdv17,
CGHnormaliter,
charm,
ChromHeatMap,
ConsensusClusterPlus,
crlmm,
cycle,
EBarrays,
ecolitk,
ENCODEFig4Band4D,
ExiMiR,
farms,
ffpe,
flowCore,
flowFlowJo,
flowFP,
flowMeans,
flowStats,
flowType,
flowUtils,
flowViz,
flowWorkspace,
frma,
frmaTools,
gcrma,
genefilter,
GeneMeta,
geneplotter,
geneRecommender,
GeneRegionScan,
GeneSelectMMD,
genomeIntervals,
GenomicFeatures,
genoset,
GEOsubmission,
GGBase,
ggbio,
GGtools,
girafe,
globaltest,
GOFunction,
GOstats,
GSEABase,
GSRI,
GSVA,
Gviz,
Harshlight,
HEM,
HiTC,
hopach,
HTqPCR,
IdMappingAnalysis,
iFlow,
imageHTS,
lapmix,
LiquidAssociation,
lumi,
maanova,
makecdfenv,
maSigPro,
mBPCR,
MCRestimate,
metaArray,
methylumi,
MiChip,
MinimumDistance,
MiPP,
MmPalateMiRNA,
multiscan,
mzR,
ncdfFlow,
nucleR,
oligo,
oligoClasses,
OrderedList,
PAnnBuilder,
panp,
pcaGoPromoter,
PCpheno,
plateCore,
plier,
ppiStats,
prada,
PROMISE,
puma,
pvac,
qpgraph,
R453Plus1Toolbox,
randPack,
ReadqPCR,
Rmagpie,
rMAT,
rqubic,
Rtreemix,
safe,
SAGx,
ShortRead,
simpleaffy,
SLGI,
SNPchip,
spade,
spkTools,
splicegear,
TEQC,
tigre,
timecourse,
topGO,
TSSi,
twilight,
VanillaICE,
VariantAnnotation,
virtualArray,
webbioc,
XDE,
xmapcore
Suggests Me
annotate,
betr,
BiocCaseStudies,
BiocGenerics,
biocViews,
breastCancerMAINZ,
breastCancerNKI,
breastCancerTRANSBIG,
breastCancerUNT,
breastCancerUPP,
breastCancerVDX,
BSgenome,
Category,
ccTutorial,
DART,
dyebiasexamples,
estrogen,
farms,
genefilter,
genefu,
geneplotter,
GlobalAncova,
globaltest,
Heatplus,
les,
nem,
pkgDepTools,
rheumaticConditionWOLLBOLD,
ROC,
survcomp,
tkWidgets,
TypeInfo,
vbmp,
widgetTools,
yeastExpData,
yeastRNASeq
Package Archives
Follow
Installation instructions to use this
package in your R session.
Mac OS X 10.6 (Snow Leopard)